|
| Status |
Public on Jan 25, 2020 |
| Title |
w26Me_65: 26 dpi wild type mycorrhizal rep3 |
| Sample type |
SRA |
| |
|
| Source name |
26 dpi wild type mycorrhizal
|
| Organism |
Hordeum vulgare |
| Characteristics |
cultivar: Ingrid
tissue: Roots
days post inoculation: 26 dpi
genotype: wild type
treatment: mycorrhizal
|
| Treatment protocol |
Control: 100% Terragreen:Sand, mycorrhizal: 90% Terragreen/Sand and 10% Rhizophagus irregularis inoculum
|
| Growth protocol |
Germinated H. vulgare cv. Ingrid wild type and Hvmlo1-5 seedlings were transferred plates containing modified Fahraeus plant agar medium (ModFP) with Augmentin (50 μg/ml), grown in a controlled-environment room at 23°C (16-h photoperiod, and 300 mmol m-2 s-1) for 3 days, then transferred to 90% sterilized Terragreen/Sand (1:1 mix of terragreen (Oil‐dry UK ltd) and sharp sand (BB Minerals))and 10% mycorrhizal inoculum (soil substrate containing Allium schoenoprasum roots exposed to Rhizophagus irregularis for 8 weeks). Plants were grown in a Weiss Technik growth cabinet at 35°C/20°C (35% RH day, 50 % RH night; 16-h photoperiod, and 500 μmol m-2 s-1, average temperature: 30°C) and harvested at 17 dpi and 26 dpi.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNAs were extracted from root tissue (Plant RNeasy Kit, Qiagen) and was treated with DNase (RNase-Free DNase Set, Qiagen).
mRNA libraries were prepared with the Illumina TruSeq® Stranded mRNA HT technology with a paired-end 150 bp (PE 150) strategy.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Kallisto, version 0.44, kmser size 31
Genome_build: IBSC Morex v2 (PMID 28447635)
Supplementary_files_format_and_content: TSV containing counts and TPM values
|
| |
|
| Submission date |
Jan 24, 2020 |
| Last update date |
Feb 01, 2020 |
| Contact name |
Catherine Jacott |
| E-mail(s) |
[email protected]
|
| Phone |
01450386134
|
| Organization name |
John Innes Centre
|
| Street address |
Colnet Lane
|
| City |
Norwich |
| ZIP/Postal code |
NR4 7UH |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL22077 |
| Series (1) |
| GSE144199 |
Mildew locus O facilitates colonization by arbuscular mycorrhiza in angiosperms |
|
| Relations |
| BioSample |
SAMN13916028 |
| SRA |
SRX7626563 |
